Experiment: 4W7V

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1GZJ

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	291	0.1M sodium cacodylate, 0.2 M sodium acetate, 28% PEG8000, 5% glycerol

Crystal Properties
Matthews coefficient	Solvent content
2.25	45.33

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 79.186	α = 90
b = 81.756	β = 90
c = 48.168	γ = 90

Symmetry
Space Group	P 21 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	MARMOSAIC 225 mm CCD		2013-08-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	LNLS BEAMLINE W01B-MX2	1.459	LNLS	W01B-MX2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	1.43	48.17	98.9	0.062	0.071	12.15	4.14		109499		-3	23.61

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.43	1.52	94.2		0.789	0.934	1.66

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1GZJ	1.43	48.17	54738	2831	99.28	0.1339	0.1319	0.173	RANDOM	20.226

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]
-0.31			-0.37		0.68

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.697
r_sphericity_free	30.838
r_dihedral_angle_4_deg	27.032
r_dihedral_angle_3_deg	13.046
r_sphericity_bonded	12.656
r_dihedral_angle_1_deg	6.049
r_rigid_bond_restr	3.137
r_mcangle_it	2.712
r_mcbond_it	2.089
r_mcbond_other	2.056

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.697
r_sphericity_free	30.838
r_dihedral_angle_4_deg	27.032
r_dihedral_angle_3_deg	13.046
r_sphericity_bonded	12.656
r_dihedral_angle_1_deg	6.049
r_rigid_bond_restr	3.137
r_mcangle_it	2.712
r_mcbond_it	2.089
r_mcbond_other	2.056
r_angle_refined_deg	1.302
r_angle_other_deg	0.799
r_chiral_restr	0.082
r_bond_refined_d	0.008
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2447
Nucleic Acid Atoms
Solvent Atoms	256
Heterogen Atoms	46

Software

Software
Software Name	Purpose
XDS	data reduction
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
XSCALE	data scaling

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.